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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Jun 13, 2010 |
| Title |
A global network of transcription factors, involving E2A, EBF1 and FOXO1, that orchestrates the B cell fate |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by array
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
It is now established that the transcription factors E2A, EBF1 and Foxo 1 play critical roles in B cell development. Here we show that E2A and EBF1 bound regulatory elements present in the Foxo1 locus. E2A and EBF1 as well as E2A and Foxo1, in turn, were wired together by a vast spectrum of cis-regulatory codes. These associations were dynamic during developmental progression. Occupancy by the E2A isoform, E47, directly elevated the abundance as well as the pattern of histone H3K4 monomethylation across putative enhancer regions. Finally, the pro-B cell epigenome was divided into clusters of loci that show E2A, EBF and Foxo1 occupancy. From this analysis a global network consisting of transcriptional regulators, signaling and survival factors, was constructed that we propose orchestrates the B cell fate.
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| Overall design |
ChIP-Seq and gene expression profiling was performed in a variety of genetically modified primary B cell populations and cell lines approximating developmental stages of B cell development.
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| Contributor(s) |
Lin YC, Jhunjhunwala S, Benner C, Heinz S, Welinder E, Mansson R, Sigvardsson M, Hagman J, Espinoza CA, Dutkowski J, Ideker T, Glass CK, Murre C |
| Citation(s) |
20543837 |
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| Submission date |
May 24, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
Christopher Benner |
| E-mail(s) |
cbenner@ucsd.edu
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| Organization name |
University of California, San Diego (UCSD)
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| Department |
Medicine
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| Street address |
9500 Gilman Dr. MC 0640
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| City |
La Jolla |
| State/province |
California |
| ZIP/Postal code |
92093-0640 |
| Country |
USA |
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| Platforms (3) |
| GPL7202 |
Agilent-014868 Whole Mouse Genome Microarray 4x44K G4122F (Probe Name version) |
| GPL9185 |
Illumina Genome Analyzer (Mus musculus) |
| GPL9250 |
Illumina Genome Analyzer II (Mus musculus) |
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| Samples (30)
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| GSM546511 |
E2A-/- pre-pro-B cell expression rep1 |
| GSM546512 |
RAG1-/- pro-B cell expression rep1 |
| GSM546513 |
EBF-/- pre-pro-B cell expression rep1 |
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| Relations |
| SRA |
SRP002585 |
| BioProject |
PRJNA127185 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE21978_RAW.tar |
2.8 Gb |
(http)(custom) |
TAR (of BED, FA, TXT) |
SRA Run Selector |
| Processed data included within Sample table |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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